genome.fa.s8.2.7.7.80.10.50.1000.121.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: At_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   

This is table  121  of  279  ( 33431 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38344599--38345274	80	7.8	90	86	7	729	28	16	18	36	1.93
38344763--38344797	14	2.5	14	90	0	52	25	14	0	60	1.35
38344599--38345201	80	7.0	88	89	6	748	27	17	17	36	1.93
38351008--38351051	3	14.7	3	85	0	61	38	61	0	0	0.96
38351008--38351050	12	3.6	12	90	0	68	39	60	0	0	0.97
38353461--38353563	51	2.0	51	100	0	206	30	9	13	46	1.75
38354687--38354729	18	2.4	18	80	7	52	41	0	6	51	1.29
38355670--38355837	46	3.6	47	88	3	234	19	24	15	40	1.90
38355670--38355888	46	5.0	46	81	10	233	21	24	15	38	1.92
38355803--38355877	38	2.0	37	92	2	123	25	25	17	32	1.97
38356085--38356225	62	2.3	62	88	0	210	24	23	20	31	1.98
38358584--38358740	51	3.1	51	91	1	262	31	15	23	28	1.96
38362226--38362305	31	2.6	31	81	0	97	41	7	3	47	1.50
38365038--38365131	47	2.0	44	80	15	102	41	3	0	55	1.16
38379296--38379351	29	2.0	29	89	3	87	35	26	16	21	1.94
38381663--38381713	17	3.0	17	88	0	75	33	15	13	37	1.87
38382391--38382501	37	2.8	40	74	8	111	29	27	20	22	1.99
38384082--38384323	120	2.0	120	91	3	398	33	9	30	26	1.88
38384361--38384454	48	1.9	49	87	6	138	28	13	13	43	1.83
38387760--38387857	38	2.5	40	70	12	98	44	3	1	51	1.24
38388251--38388377	66	1.9	65	87	4	184	62	3	3	30	1.29
38388615--38388653	18	2.2	18	100	0	78	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38388615--38388671	18	3.1	18	87	7	71	31	0	1	66	1.02
38389754--38389795	20	2.2	18	87	8	57	45	2	2	50	1.27
38390125--38390161	18	2.0	20	89	10	60	10	37	0	51	1.37
38395795--38395878	26	3.2	26	89	0	132	38	26	3	32	1.73
38411507--38411574	34	2.0	34	100	0	136	55	17	5	20	1.62
38414400--38414430	3	10.3	3	92	0	53	70	0	0	29	0.87
38419697--38419748	25	2.1	25	85	0	68	38	15	9	36	1.80
38420998--38421030	11	3.0	11	91	8	50	63	0	27	9	1.24
38444015--38444064	6	8.3	6	75	16	50	6	18	0	76	0.99
38447650--38447714	32	2.0	32	85	5	87	50	3	1	44	1.26
38447853--38447902	16	3.1	16	79	2	55	58	0	0	42	0.98
38454718--38454788	3	24.0	3	73	13	58	30	4	4	60	1.35
38454718--38454796	15	5.1	15	71	17	63	30	3	6	59	1.40
38456148--38456208	32	1.9	32	100	0	122	22	13	3	60	1.47
38459471--38459495	4	6.2	4	100	0	50	24	0	0	76	0.80
38459488--38459533	19	2.3	20	92	7	76	39	10	8	41	1.71
38465874--38466042	93	1.8	93	96	0	311	28	29	21	20	1.98
38465867--38466043	46	3.8	46	80	12	218	28	29	20	20	1.98
38472905--38472980	31	2.4	31	82	6	91	60	3	0	35	1.15
38472911--38472970	23	2.7	23	71	16	56	63	1	0	35	1.05
38473191--38473249	30	1.9	31	86	3	84	25	22	5	47	1.71
38473190--38473259	30	2.3	31	80	7	81	28	20	5	45	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38475315--38475344	14	2.1	14	100	0	60	56	13	0	30	1.37
38482383--38482452	31	2.2	31	92	2	113	41	12	4	41	1.63
38482383--38482468	31	2.7	31	83	7	84	40	15	3	40	1.64
38485147--38485202	26	2.2	25	87	9	87	30	7	16	46	1.73
38485154--38485202	26	1.9	25	95	4	89	30	8	16	44	1.76
38502062--38502101	21	1.9	21	85	10	55	65	0	5	30	1.14
38503153--38503197	20	2.4	18	85	10	56	68	2	20	8	1.27
38503153--38503192	19	2.0	20	85	4	55	67	2	20	10	1.31
38506883--38506918	3	12.0	3	100	0	72	33	0	0	66	0.92
38513034--38513075	21	2.0	21	86	9	59	76	0	23	0	0.79
38514018--38514143	54	2.2	57	84	13	156	18	19	20	42	1.90
38524044--38524100	10	5.6	10	74	17	55	61	0	3	35	1.13
38524044--38524092	20	2.4	21	86	6	66	63	0	4	32	1.13
38525975--38526011	19	1.9	19	89	10	58	59	2	0	37	1.12
38528916--38529062	39	3.8	38	86	2	204	32	12	21	32	1.91
38528916--38529062	77	1.9	77	85	2	206	32	12	21	32	1.91
38528916--38529088	77	2.2	78	82	4	199	30	13	22	33	1.92
38530253--38530300	22	2.2	22	88	7	71	45	22	2	29	1.64
38535744--38535777	17	2.0	17	94	0	59	44	50	0	5	1.26
38540383--38540416	17	2.0	17	94	0	59	44	50	0	5	1.26
38541193--38541223	2	15.5	2	100	0	62	0	48	0	51	1.00
38541523--38541557	4	8.8	4	87	0	52	48	22	5	22	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38545004--38545057	20	2.6	21	85	5	74	55	14	9	20	1.66
38544962--38545048	20	4.3	19	77	8	75	54	12	10	22	1.68
38545650--38545691	11	3.9	11	84	6	50	19	47	2	30	1.62
38548844--38549017	87	2.0	88	84	3	226	37	14	21	26	1.92
38550550--38550599	17	2.7	20	78	18	70	10	0	44	46	1.37
38555545--38555667	62	2.0	62	96	0	228	37	18	17	26	1.93
38575741--38575890	75	2.0	75	94	0	264	32	12	14	40	1.84
38576345--38576370	7	3.7	7	100	0	52	53	0	0	46	1.00
38577705--38577795	34	2.7	34	89	1	130	50	13	1	35	1.48
38577806--38577871	30	2.2	30	86	8	89	40	10	6	42	1.64
38580063--38580155	18	5.2	18	90	0	150	27	24	16	31	1.96
38588427--38588458	10	3.3	10	95	4	57	31	6	0	62	1.20
38592177--38592226	5	10.4	5	85	8	59	16	2	0	82	0.77
38592175--38592233	21	3.2	19	73	15	52	18	1	0	79	0.81
38595839--38595918	41	1.9	42	85	7	110	20	33	26	20	1.96
38598679--38598826	48	3.1	48	88	0	224	38	7	24	29	1.83
38609658--38609715	29	2.0	30	89	3	91	29	18	18	32	1.96
38611154--38611189	17	2.1	17	90	10	56	44	2	11	41	1.54
38611177--38611209	9	3.8	9	88	8	50	48	0	3	48	1.17
38615185--38615427	131	1.9	131	88	1	371	27	18	18	34	1.95
38627673--38627816	3	48.0	3	66	16	50	31	3	4	61	1.32
38627673--38627715	21	2.1	19	87	12	59	32	2	0	65	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38627674--38627736	22	2.7	22	80	11	56	31	3	4	60	1.33
38628249--38628282	14	2.3	15	85	10	52	35	8	0	55	1.31
38628264--38628337	27	2.7	26	83	10	87	33	6	5	54	1.50
38628349--38628386	19	1.9	19	89	5	58	28	2	7	60	1.38
38628349--38628511	21	7.5	20	69	23	73	33	2	7	57	1.40
38628454--38628496	11	4.1	11	76	11	54	34	2	6	55	1.39
38628429--38628530	46	2.2	47	81	10	122	33	2	3	59	1.30
38639349--38639459	55	2.0	55	98	0	213	39	21	15	23	1.91
38640588--38640901	161	2.0	156	88	4	459	28	15	20	36	1.93
38640737--38640993	88	2.9	87	82	5	304	28	16	19	35	1.94
38642156--38642184	8	3.6	8	100	0	58	89	0	0	10	0.48
38642726--38642862	3	45.0	3	67	16	50	31	3	3	61	1.31
38642726--38642768	21	2.1	19	87	12	59	32	2	0	65	1.06
38642727--38642786	22	2.8	22	80	12	54	31	3	3	61	1.28
38642917--38642979	24	2.6	25	76	19	62	34	7	3	53	1.46
38643297--38643330	14	2.3	15	85	10	52	35	8	0	55	1.31
38643406--38643457	20	2.5	21	81	12	72	32	3	7	55	1.46
38643406--38643503	20	4.8	20	70	23	71	31	2	8	58	1.39
38643484--38643546	18	3.5	17	72	23	58	34	3	3	58	1.30
38643508--38643545	20	1.9	19	94	5	67	36	2	5	55	1.37
38643507--38643866	113	3.1	115	65	16	321	34	5	7	52	1.54
38643381--38643864	227	2.1	227	99	0	952	33	5	7	53	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38643633--38643684	20	2.5	21	81	12	72	32	3	7	55	1.46
38643633--38643730	20	4.8	20	70	23	71	31	2	8	58	1.39
38643711--38643773	18	3.5	17	72	23	58	34	3	3	58	1.30
38643735--38643772	20	1.9	19	94	5	67	36	2	5	55	1.37
38645346--38645418	3	25.7	3	77	10	73	2	28	1	67	1.13
38645349--38645415	11	5.9	11	82	8	73	2	28	1	67	1.14
38645345--38645420	14	5.1	15	76	16	79	2	27	1	68	1.11
38646491--38646551	30	2.1	30	87	3	88	63	0	0	36	0.94
38646551--38646606	20	2.8	19	84	12	69	62	7	1	28	1.32
38650182--38650214	17	2.0	17	94	5	59	48	0	15	36	1.45

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279